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Path Analysis: A Method to Estimate Altered Pathways in Time-varying Graphs of Neuroimaging Data

Haleh Falakshahi, Hooman Rokham, Zening Fu, Armin Iraji, Daniel H. Mathalon, Judith M. Ford, Bryon A. Mueller, Adrian Preda, Theo G. M. van Erp, Jessica A. Turner, Sergey Plis, Vince D. Calhoun
<span title="2022-04-05">2022</span> <i title="MIT Press - Journals"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hjuah27335hxnos7w5tnkkihzy" style="color: black;">Network Neuroscience</a> </i> &nbsp;
Graph theoretical methods have been widely used to study human brain networks in psychiatric disorders.  ...  However, the focus has primarily been on global graphic metrics with little attention to the information contained in paths connecting brain regions.  ...  Identifying edges associated with disconnection and abnormal integration in static and time varying graphs We applied our proposed algorithm to identify missing edges that are associated with disconnection  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1162/netn_a_00247">doi:10.1162/netn_a_00247</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/gjvrvhv3vre57jwhuztrnpdrhm">fatcat:gjvrvhv3vre57jwhuztrnpdrhm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20220515093819/https://watermark.silverchair.com/netn_a_00247.pdf?token=AQECAHi208BE49Ooan9kkhW_Ercy7Dm3ZL_9Cf3qfKAc485ysgAAAswwggLIBgkqhkiG9w0BBwagggK5MIICtQIBADCCAq4GCSqGSIb3DQEHATAeBglghkgBZQMEAS4wEQQMfDKJH6QDUxuPix3_AgEQgIICfxnU8LRlaSuJYikqzYs0Og9aQ5Cf_GWDv2dUyZzoeYo9XPb2plU_yfqCwKgYWGtulJzC4nKo9Nhiz3cIShLrC9F2-dvvxVsLRVr9nxMP6xzQfdhZdcPStZtHU0jexGts188Zft3Uub30tZ_p9HNZTp2IWk-CeeCX-HAGVIuXgmYsExwL0l5QDTjOzoVYYvz8LBfq5-yZT4zX8w9Y-MjC8eWuYtA7V1_HlCxLfZbOxlRPOmq31B--vzG556dJfd8XZjDK7H-vl6LPDc1MQRADRqNYrnbfxAq96J-mh0h9m9IRS1AxWK9QDBYUdV971F5nJfYUgb3_LNzybIT1JjuFkZQzUqC3Umx8Hh6FQNSUPPNQ1-rh9D1UZ0lUQwuU_unQZASRskG-hrksoITL9qU-Q4RLBWMIaFiUVMSNSim7KnwSePBZCyvweN6PBzj_JqwgaqijAvJGTjVpLU3AoHyUDbC5tE1y872Cs8FOcPM5zIatuWy5eP-8uG93tsxDIRpC63EP_QcV_wAcVQuThjIa7IAOSc0WMlsTduGeSHAdeolhLtC34GAu-CIhxI9tBaTPbTbpQLdbw23iGPpRKeBQdCuudBKJHd6yrWwZ8_jDvDL93klGFkDusawiKcNTYkdijIlA5HQ-AZ_v4p77SlYUVYnQEGEBhwD3t35KYs3a0KFGiSJW9_MtNWiRpwh0A9DkzAYJIP6CojVHadey8BGDsTTgeyfOdWrp-NefVvpnDGtkPIZButKD5TLiIPMuUKymT0Xnz6tteRdGFip5xx1rsHjXucRqN4glV_xRmkW2JisBK1Gnl-q3XmEIYwBUquGO1C_PhlgG4h_rGtw7TpqBoA" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/41/1f/411f606327446edf613c5e0b5f760abed3cedc35.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1162/netn_a_00247"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> mitpressjournals.org </button> </a>

Characterizing Rapid Fluctuations of Resting State Functional Connectivity in Demyelinating, Neurodegenerative, and Psychiatric Conditions: From Static to Time-Varying Analysis

Paola Valsasina, Milagros Hidalgo de la Cruz, Massimo Filippi, Maria A. Rocca
<span title="2019-07-10">2019</span> <i title="Frontiers Media SA"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/wrk3kouosrhcxiprcbguskdipu" style="color: black;">Frontiers in Neuroscience</a> </i> &nbsp;
Time-varying functional connectivity (TVC) is a novel approach that allows capturing reoccurring patterns of interaction among functional brain networks.  ...  Aim of this review is to provide a description of the methods currently used to assess TVC on RS fMRI data, and to summarize the main results of studies applying TVC in healthy controls and patients with  ...  The review is structured as follows: in section Methods Used to Assess Time-Varying Functional Connectivity, we present the main approaches developed to investigate TVC using fMRI data, with a main emphasis  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3389/fnins.2019.00618">doi:10.3389/fnins.2019.00618</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/31354402">pmid:31354402</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6636554/">pmcid:PMC6636554</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/lezpk4273ne6jma6z45k6bsvii">fatcat:lezpk4273ne6jma6z45k6bsvii</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200209142741/https://fjfsdata01prod.blob.core.windows.net/articles/files/456277/pubmed-zip/.versions/2/.package-entries/fnins-13-00618-r1/fnins-13-00618.pdf?sv=2015-12-11&amp;sr=b&amp;sig=AiZT3w2Gbyau5nGN%2FHWphN7GsWSprxEzphLavUNDTpA%3D&amp;se=2020-02-09T14%3A28%3A09Z&amp;sp=r&amp;rscd=attachment%3B%20filename%2A%3DUTF-8%27%27fnins-13-00618.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/ce/69/ce69cc6d9d6b50933c3bfa8b175baa0cf9f958d1.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3389/fnins.2019.00618"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> frontiersin.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6636554" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Capturing time-varying brain dynamics

Klaus Lehnertz, Christian Geier, Thorsten Rings, Kirsten Stahn
<span title="">2017</span> <i title="EDP Sciences"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/4jzgqahm2zgs7ldg3xswsgwlti" style="color: black;">EPJ Nonlinear Biomedical Physics</a> </i> &nbsp;
We here review these developments, and by taking the example of evolving epileptic brain networks, we discuss the progress that has been made in capturing and understanding brain dynamics that varies on  ...  Deeper insights can be gained from recent improvements of time-series-analysis techniques to assess strength and direction of interactions together with methodologies for deriving and characterizing evolving  ...  The authors declare that they have no conflicts of interest in relation to this article. Authors' contribution All authors have written the paper and have given final approval for its publication.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1051/epjnbp/2017001">doi:10.1051/epjnbp/2017001</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/kbb5ezjo4jaefds3t4cr5oyyhe">fatcat:kbb5ezjo4jaefds3t4cr5oyyhe</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180721202606/https://www.epj-nbp.org/articles/epjnbp/pdf/2017/01/epjnbp170003.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/4a/a9/4aa9a8c00068f0654265fda597015de9fbc17fb7.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1051/epjnbp/2017001"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a>

Detecting abnormal connectivity in schizophrenia via a joint directed acyclic graph estimation model [article]

Gemeng Zhang, Aiying Zhang, Biao Cai, Zhuozhuo Tu, Vince D. Calhoun, Yu-Ping Wang
<span title="2020-10-25">2020</span> <i > arXiv </i> &nbsp; <span class="release-stage" >pre-print</span>
Functional connectivity (FC) has been widely used to study brain network interactions underlying the emerging cognition and behavior of an individual.  ...  In our case-control study of the MIND Clinical Imaging Consortium (MCIC) data, we have successfully identified decreased functional integration, disrupted hub structures and characteristic edges (CtEs)  ...  ACKNOWLEDGMENT The authors would like to thank the partial support by NIH (P20GM109068, R01MH104680, R01MH107354, R01MH103220, R01EB020407) and NSF (#1539067).  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener" href="https://arxiv.org/abs/2010.13029v1">arXiv:2010.13029v1</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/6uhu6ywt45coxjaoamjctyy4au">fatcat:6uhu6ywt45coxjaoamjctyy4au</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20201029105137/https://arxiv.org/pdf/2010.13029v1.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/49/a3/49a3226cd542a8d9535743118738de5c4b738f54.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener" href="https://arxiv.org/abs/2010.13029v1" title="arxiv.org access"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> arxiv.org </button> </a>

Review on Graph Clustering and Subgraph Similarity Based Analysis of Neurological Disorders

Jaya Thomas, Dongmin Seo, Lee Sael
<span title="2016-06-01">2016</span> <i title="MDPI AG"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/3loumxx7kzamnlu4h6x3xoz6ay" style="color: black;">International Journal of Molecular Sciences</a> </i> &nbsp;
We review a wide spectrum of graph representation and graph analysis methods and their application in the study of both the genomic level and the phenotypic level of the neurological disorder.  ...  Although there are still not many integrative analyses of graphs due to the complexity in analysis, multi-layer graph analysis is a promising framework that can incorporate various data types.  ...  The multi-layer graph is also used to model time-varying brain networks. Bassett et al.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3390/ijms17060862">doi:10.3390/ijms17060862</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/27258269">pmid:27258269</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4926396/">pmcid:PMC4926396</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/42vgbgz6erg2jaquohdirhw4ge">fatcat:42vgbgz6erg2jaquohdirhw4ge</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170531174847/http://www3.cs.stonybrook.edu/~sael/paper/Thomas,%20Seo,%20Sael%20-%202016%20-%20Review%20on%20graph%20neurological%20disorders.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/69/53/69535ef44322fb1fcdd84e73667b4b93763d89da.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3390/ijms17060862"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> mdpi.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4926396" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Graph Signal Processing of Low and High-Order Dynamic Functional Connectivity Networks Using EEG Resting-State for Schizophrenia: A Whole Brain Breakdown [article]

Stavros I Dimitriadis
<span title="2019-02-15">2019</span> <i title="Cold Spring Harbor Laboratory"> bioRxiv </i> &nbsp; <span class="release-stage" >pre-print</span>
In the present study, a dynamic functional connectivity graph (DFCG) has been estimated using the imaginary part of phase lag value (iPLV).  ...  Conventional static or dynamic functional connectivity graph (FCG/DFCG) referred to as low-order FCG focusing on temporal correlation estimates of the resting-state electroencephalography (rs-EEG) time  ...  Keywords: EEG, dynamic functional connectivity graphs, multiplexity, chronnectomics, dominant intrinsic coupling modes, schizophrenia Introduction Schizophrenia (ScZ) is defined as a brain disconnectivity  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/551671">doi:10.1101/551671</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/xuzbplj4argzzn5wa5lbzhoq4i">fatcat:xuzbplj4argzzn5wa5lbzhoq4i</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190502004741/https://www.biorxiv.org/content/biorxiv/early/2019/02/15/551671.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/03/8d/038dcb63a17da5fb06b83e159c92e0eac15be9b5.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/551671"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> biorxiv.org </button> </a>

Application of Graph Theory for Identifying Connectivity Patterns in Human Brain Networks

Farzad V. Farahani, Waldemar Karwowski, Nichole R. Lighthall
<span title="2019-06-06">2019</span> <i title="Frontiers Media SA"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/wrk3kouosrhcxiprcbguskdipu" style="color: black;">Frontiers in Neuroscience</a> </i> &nbsp;
Computational methods, especially graph theory-based methods, have recently played a significant role in understanding brain connectivity architecture.  ...  Moreover, this article provides an overview of the existing functional and effective connectivity methods used to construct the brain network, along with their advantages and pitfalls.  ...  methods in human brain connectivity from 1990 to the present, focusing on graph theory.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3389/fnins.2019.00585">doi:10.3389/fnins.2019.00585</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/31249501">pmid:31249501</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6582769/">pmcid:PMC6582769</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/ayvgxsnemjepdah54wan3gvbmm">fatcat:ayvgxsnemjepdah54wan3gvbmm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200211062725/https://fjfsdata01prod.blob.core.windows.net/articles/files/439505/pubmed-zip/.versions/2/.package-entries/fnins-13-00585-r1/fnins-13-00585.pdf?sv=2015-12-11&amp;sr=b&amp;sig=%2Bdbvlmv5nnEMGLNLQdYubLG5y7%2F9OyYLvrm%2Bbvn8Ozg%3D&amp;se=2020-02-11T06%3A27%3A54Z&amp;sp=r&amp;rscd=attachment%3B%20filename%2A%3DUTF-8%27%27fnins-13-00585.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/e3/fc/e3fcfaa177901742a4294d599de8bc2d8bfc9a3a.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3389/fnins.2019.00585"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> frontiersin.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6582769" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Graph analysis of functional brain networks: practical issues in translational neuroscience

F. De Vico Fallani, J. Richiardi, M. Chavez, S. Achard
<span title="2014-09-01">2014</span> <i title="The Royal Society"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/p7stgfom7rbkheuw5cc6avanwu" style="color: black;">Philosophical Transactions of the Royal Society of London. Biological Sciences</a> </i> &nbsp;
In the last decade, the abstract representation of the brain as a graph has allowed to visualize functional brain networks and describe their non-trivial topological properties in a compact and objective  ...  Nowadays, the use of graph analysis in translational neuroscience has become essential to quantify brain dysfunctions in terms of aberrant reconfiguration of functional brain networks.  ...  This supports the idea that integration between brain regions is deficient in schizophrenia.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1098/rstb.2013.0521">doi:10.1098/rstb.2013.0521</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/25180301">pmid:25180301</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4150298/">pmcid:PMC4150298</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/qneezcelfvhwxlpxupiwccbht4">fatcat:qneezcelfvhwxlpxupiwccbht4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180720170712/http://rstb.royalsocietypublishing.org/content/royptb/369/1653/20130521.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/f7/22/f722b2592b3e9c5b3d009739a55c6bf0532f720c.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1098/rstb.2013.0521"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4150298" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Graph Theory and Networks in Biology [article]

Oliver Mason, Mark Verwoerd
<span title="2006-04-06">2006</span> <i > arXiv </i> &nbsp; <span class="release-stage" >pre-print</span>
In this paper, we present a survey of the use of graph theoretical techniques in Biology.  ...  In particular, we discuss recent work on identifying and modelling the structure of bio-molecular networks, as well as the application of centrality measures to interaction networks and research on the  ...  Science Foundation Ireland is not responsible for any use of data appearing in this publication.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener" href="https://arxiv.org/abs/q-bio/0604006v1">arXiv:q-bio/0604006v1</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/nrafbzn7kzdfvkawrfuwqattz4">fatcat:nrafbzn7kzdfvkawrfuwqattz4</a> </span>
<a target="_blank" rel="noopener" href="https://archive.org/download/arxiv-q-bio0604006/q-bio0604006.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> File Archive [PDF] </button> </a> <a target="_blank" rel="external noopener" href="https://arxiv.org/abs/q-bio/0604006v1" title="arxiv.org access"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> arxiv.org </button> </a>

Rich-Club in the Brain's Macrostructure: Insights from Graph Theoretical Analysis

Dae-Jin Kim, Byoung-Kyong Min
<span title="2020-06-29">2020</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/cmflnsn2l5gylcviv447te3mku" style="color: black;">Computational and Structural Biotechnology Journal</a> </i> &nbsp;
The rich-club of the brain network is essential as it directly regulates functional integration across multiple segregated regions and helps to optimize cognitive processes.  ...  Here, we review the recent advances in rich-club organization to address the fundamental roles of the rich-club in the brain and discuss how these core brain regions affect brain development and disorders  ...  Additionally, higher connectivity strength of rich-club connections is associated with positive changes in general functioning over time in schizophrenia [87, 88] .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.csbj.2020.06.039">doi:10.1016/j.csbj.2020.06.039</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/32695269">pmid:32695269</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC7355726/">pmcid:PMC7355726</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/xd3o2bqpijakbktgtshythucy4">fatcat:xd3o2bqpijakbktgtshythucy4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210605100800/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC7355726&amp;blobtype=pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/78/7c/787c5e13497d41f50aa2f9149f9109c7e97fd4e4.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.csbj.2020.06.039"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> elsevier.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7355726" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Brain Graphs: Graphical Models of the Human Brain Connectome

Edward T. Bullmore, Danielle S. Bassett
<span title="2011-04-27">2011</span> <i title="Annual Reviews"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/rpukehwtajcnzphwqlgxiyudsi" style="color: black;">Annual Review of Clinical Psychology</a> </i> &nbsp;
Brain graphs provide a relatively simple and increasingly popular way of modeling the human brain connectome, using graph theory to abstractly define a nervous system as a set of nodes (denoting anatomical  ...  regions or recording electrodes) and interconnecting edges (denoting structural or functional connections).  ...  For example, in schizophrenia, a profound disconnection between frontal and temporal cortices has been suggested to characterize the brain (Friston & Frith 1995) ; in contrast, people with autism may  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1146/annurev-clinpsy-040510-143934">doi:10.1146/annurev-clinpsy-040510-143934</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/21128784">pmid:21128784</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/ggvwjpajkrhmtcutrhwbkvcluy">fatcat:ggvwjpajkrhmtcutrhwbkvcluy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20160112164841/http://www.ecnp-congress.eu/%7E/media/Files/ecnp/publication/Talk%20of%20the%20Month/Brain%20Graphs%20-%20Graphical%20Models%20of%20the%20Human%20Brain%20Connectome.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/c6/b7/c6b745c7ecc3fc89d0df71727e1a0f456be7187a.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1146/annurev-clinpsy-040510-143934"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Graph theoretical analysis of complex networks in the brain

Cornelis J Stam, Jaap C Reijneveld
<span title="">2007</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/inkrn6jglrdnfcj7q25pwxzdha" style="color: black;">Nonlinear Biomedical Physics</a> </i> &nbsp;
Graph analysis has been used in the study of models of neural networks, anatomical connectivity, and functional connectivity based upon fMRI, EEG and MEG.  ...  There is also increasing evidence that various types of brain disease such as Alzheimer's disease, schizophrenia, brain tumours and epilepsy may be associated with deviations of the functional network  ...  Acknowledgements Thanks to Els van Deventer who helped to retrieve many of the papers used in this review.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1753-4631-1-3">doi:10.1186/1753-4631-1-3</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/17908336">pmid:17908336</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC1976403/">pmcid:PMC1976403</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/4losfychkrhedhxfroqnkzj4we">fatcat:4losfychkrhedhxfroqnkzj4we</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170820074550/https://nonlinearbiomedphys.biomedcentral.com/track/pdf/10.1186/1753-4631-1-3?site=nonlinearbiomedphys.biomedcentral.com" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/e8/74/e8746131b2d2fae904b06cce8808fff6e6d24488.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1753-4631-1-3"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1976403" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Graph theory and networks in Biology

O. Mason, M. Verwoerd
<span title="2007-03-01">2007</span> <i title="Institution of Engineering and Technology (IET)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ffpmxadwhvduloylhs64zvxkrm" style="color: black;">IET Systems Biology</a> </i> &nbsp;
In this paper, we present a survey of the use of graph theoretical techniques in Biology.  ...  In particular, we discuss recent work on identifying and modelling the structure of bio-molecular networks, as well as the application of centrality measures to interaction networks and research on the  ...  The authors would like to thank the anonymous reviewers for their thorough and insightful reviews which have helped to improve the paper.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1049/iet-syb:20060038">doi:10.1049/iet-syb:20060038</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/17441552">pmid:17441552</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/sni2uqu5orbdtdvsab4faqn5c4">fatcat:sni2uqu5orbdtdvsab4faqn5c4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170706075555/http://www.hamilton.ie/ollie/Downloads/BioNetsReview.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/f4/c8/f4c8f9f406fb93b906c7fee8dce8a24b28621399.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1049/iet-syb:20060038"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a>

Neural network spectral robustness under perturbations of the underlying graph [article]

Anca Radulescu
<span title="2015-07-16">2015</span> <i > arXiv </i> &nbsp; <span class="release-stage" >pre-print</span>
In this paper, our main goal is to study the spectra of the graph adjacency and Laplacian matrices, with a focus on three aspects in particular: (1) the sensitivity/robustness the spectrum in response  ...  We suggest potential applications to understanding synaptic restructuring in learning networks, and the effects of network configuration to function of emotion-regulatory neural circuits.  ...  A lot of effort has been invested recently towards developing and using graph-theoretical network measures in conjunction with statistical methods, in order to identify the effects of abnormal connectivity  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener" href="https://arxiv.org/abs/1304.5232v2">arXiv:1304.5232v2</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/govvl4h2yfdkrfvqckyyvoo5me">fatcat:govvl4h2yfdkrfvqckyyvoo5me</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200901042125/https://arxiv.org/pdf/1304.5232v2.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/b2/02/b2027b68e432704857fd4d56a0c38b72e0ac5067.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener" href="https://arxiv.org/abs/1304.5232v2" title="arxiv.org access"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> arxiv.org </button> </a>

Graph Autoencoders for Embedding Learning in Brain Networks and Major Depressive Disorder Identification [article]

Fuad Noman, Chee-Ming Ting, Hakmook Kang, Raphael C.-W. Phan, Brian D. Boyd, Warren D. Taylor, Hernando Ombao
<span title="2021-07-27">2021</span> <i > arXiv </i> &nbsp; <span class="release-stage" >pre-print</span>
We propose a graph deep learning framework to incorporate the non-Euclidean information about graph structure for classifying functional magnetic resonance imaging (fMRI)- derived brain networks in major  ...  Brain functional connectivity (FC) reveals biomarkers for identification of various neuropsychiatric disorders.  ...  Applications of spectral GCNs to brain disorder detection from brain functional networks are introduced only recently and in its very early stage, e.g., for predicting ASD and conversion from MCI to AD  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener" href="https://arxiv.org/abs/2107.12838v1">arXiv:2107.12838v1</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/eiue2jkh4recljh4qiavj44c6u">fatcat:eiue2jkh4recljh4qiavj44c6u</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210730182655/https://arxiv.org/pdf/2107.12838v1.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/cd/e0/cde002e251fe43ef6637183517097da126fe4366.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener" href="https://arxiv.org/abs/2107.12838v1" title="arxiv.org access"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> arxiv.org </button> </a>
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